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The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens.
Genome Biol. 2019 Nov 19;20(1):244. doi: 10.1186/s13059-019-1835-8.
Genome Biol. 2019.
PMID: 31744546
Free PMC article.
ECDomainMiner: discovering hidden associations between enzyme commission numbers and Pfam domains.
Alborzi SZ, Devignes MD, Ritchie DW.
Alborzi SZ, et al.
BMC Bioinformatics. 2017 Feb 13;18(1):107. doi: 10.1186/s12859-017-1519-x.
BMC Bioinformatics. 2017.
PMID: 28193156
Free PMC article.
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Computational discovery of direct associations between GO terms and protein domains.
Alborzi SZ, Ritchie DW, Devignes MD.
Alborzi SZ, et al.
BMC Bioinformatics. 2018 Nov 20;19(Suppl 14):413. doi: 10.1186/s12859-018-2380-2.
BMC Bioinformatics. 2018.
PMID: 30453875
Free PMC article.
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PPIDomainMiner: Inferring domain-domain interactions from multiple sources of protein-protein interactions.
Alborzi SZ, Ahmed Nacer A, Najjar H, Ritchie DW, Devignes MD.
Alborzi SZ, et al.
PLoS Comput Biol. 2021 Aug 9;17(8):e1008844. doi: 10.1371/journal.pcbi.1008844. eCollection 2021 Aug.
PLoS Comput Biol. 2021.
PMID: 34370723
Free PMC article.
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A structure-based classification and analysis of protein domain family binding sites and their interactions.
Ghoorah AW, Devignes MD, Alborzi SZ, Smaïl-Tabbone M, Ritchie DW.
Ghoorah AW, et al. Among authors: alborzi sz.
Biology (Basel). 2015 Apr 9;4(2):327-43. doi: 10.3390/biology4020327.
Biology (Basel). 2015.
PMID: 25860777
Free PMC article.
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